RNA 3D Hub

JAR3D Query RF03087-CCF-3.98 completed
Run on Motif Atlas Version using the Rfam secondary structure. Run with the CaCoFold secondary structure.

Rfam family RF03087 maps to these 30 chains: 9ISV|1|A, 9J3R|1|A, 9J3R|1|B, 9J3R|1|C, 9J3R|1|D, 9J3T|1|A, 9J3T|1|B, 9J3T|1|C, 9J3T|1|D, 9J3T|1|E, 9J3T|1|F, 9J3T|1|G, 9J3T|1|H, 9MM6|1|A, 9MM6|1|E, 9MM6|1|I, 9MM6|1|M, 9MM6|1|Q, 9MM6|1|U, 9MM6|1|Y, 9MM6|1|c, 9MME|1|U, 9MME|1|Y, 9MME|1|c, 9MME|1|g, 9MME|1|k, 9MME|1|o, 9MME|1|s, 9MME|1|w, 9MMG|1|c See more about them at RNA 3D Hub by filtering on the chain or the Rfam family.

Loop 9 4-way junction loop

Column numbers: 88-112, 186-188, 251-256, 298-308 - View nucleotides in PDB file(s) 
    Scored sequences and counts

    
    GAAUGAAGCU--------------C*G-C*G-A-AG*U-GAAAGUAA-   17

    
    GGAAAAUG----------------A*U-U*C-G-AG*C-AAGAUUAA-   11

    
    GAAUAAAGCU--------------C*G-C*G-A-AG*U-GAAAGUAA-    6

    
    GAAGCUGU----------------G*U-U*A-GAA-*A-ACACAGAA-    6

    
    GUGCUAAAUCGCU-----------C*G-G*G-A-AU*A-AAGACGUU-    5

    
    GAAUUG------------------A*U-U*G-A-AG*C-AACAAAGU-    4

    
    UAAA--------------------C*GAG*U-ACGA*U-GAAUU--A-    4

    
    GGAAAGCCA---------------C*G-U*G-A-AG*C-AACGGCAAA    3

    
    UGAAUGUAG---------------A*U-U*A-A-AG*C-AAAUACAAG    3

    
    GAAUGCAG----------------A*U-U*A-U-AG*C-AAGUGCAA-    3

    
    GUAAUUUC----------------C*G-G*G-G-AG*C-AACAAAAA-    3

    
    UGAAUG------------------A*UUG*U-U-CU*G-AGUAUCAAG    3

    
    GGUAACG-----------------A*U-U*G-A-AG*C-AACAAUGC-    3

    
    GGUGACG-----------------A*U-U*G-A-AG*C-AACAAUGC-    3

    
    CUUAAUAACUACU-----------A*U-U*A-G-CA*G-UAGAGAGA-    2

    
    GAAAAGUGCU--------------C*G-C*G-A-AU*A-GAAAGUAAA    2

    
    UGUGACGGAA--------------C*G-U*G-G-AG*C-AACUUCAGG    2

    
    ACCUCUAAUU--------------C*GA-*--UCAG*U-GCGUGGGU-    2

    
    GGAACGCCA---------------C*G-U*G-A-AG*C-AACGGCAAA    2

    
    GUAGUACUC---------------A*U-G*G-A-AG*C-AACAGUAAA    2

    
    GUGAUUCAG---------------A*U-U*G-G-AG*C-AACUGAAGG    2

    
    CUAAACAAGG--------------C*G-U*G-A-AU*A--AACUUAA-    2

    
    GAAUAUUC----------------A*U-G*G-A-AG*C-AACAACAAA    2

    
    GGAUGUCG----------------G*C-U*A-UACU*U-AAAGACAA-    2

    
    ACAUAAUUCC--------------C*-UU*G-U---*--UAAGAAGAU    2

    
    CAACCGGA----------------G*U-U*G-G-AG*C-AAUCGAAG-    2

    
    GAAUAGUG----------------G*U-U*G-UAAG*C--AAAACAU-    2

    
    GUACUUUC----------------A*U-G*G-G-AG*C-AACAAAAA-    2

    
    GUAGUUUC----------------U*A-G*G-G-AG*C-AACAAAAA-    2

    
    GAAAUGGU----------------C*G-U*G-A-A-*U-AAAUCAAA-    2

    
    GAAUAGUG----------------G*U-U*U-A-AG*C-AAAA-CAU-    2

    
    GGUGAUG-----------------A*U-U*G-A-AG*C-AACAACGC-    2

    
    CAAGG-------------------A*U-U*G-A-AG*C-AACCGAGCA    2

    
    GAAAUGGU----------------C*G-U*G-A-A-*--AAAUCAAA-    2

    
    GUAAUG------------------A*U-U*G-A-AG*C-AACAAUUC-    2

    
    UAAACCC------------------*A-G*U-ACGA*U-GAA--UUA-    2

    
    GCA---------------------C*G-U*G-GAUG*CAAAGCG--A-    2

    
    AUUA--------------------A*U-U*G-A-AG*C-AACAAU---    2

    
    CCUAUAAAUAAUACUCACAUUCCUG*U-G*G-A-AA*G-AAAAGGAUG    1

    
    CUAGUCACAUAUGACAAAUUAG--A*UUU*A-CAAG*C-AAGUAAGUG    1

    
    AGGGUUAAUCUCGUAAAGCGG---C*AAA*C-U-AC*G-UGCCGUGGG    1

    
    CUACCAUUGUUAUGGGAAGCAG--A*U-U*U-A-CG*C-AAGUGUGUG    1

    
    UAAGGGCGACCGAAAGUCCUAA--A*UAC*G---AC*G-UGUGAAGAU    1

    
    UCCUAAUCAAGACGCCCCCUG---C*G-C*C-AACG*C-GCCGGCCGG    1

    
    CUUCGCUUUCGAGCGUACUACG--C*GCU*U-U--G*C-UGUUAG-AG    1

    
    CCCACCUGCGGGUAAGAAU-----A*AAA*G-CCAC*A--AUGGUUCU    1

    
    CCGCUCGAAGAGAGUGGUCUAG--A*U-G*C-U-GC*U-----AGAGG    1

    
    UCUGCCUUAAGAC--------UCUC*G-G*G-A-AU*A-AAGAAGCA-    1

    
    CUUAAUAACUACU-----------A*UUU*GAG-CA*G-UAGAGAGA-    1

    
    GGACAUGAAAAGGU----------C*-GU*G-GAGA*C-AAACCUAA-    1

    
    CGUGCUAAAUCGCU----------C*G-G*G-A-AU*A-AAGACGUU-    1

    
    GGUAAUAAAUCCU-----------G*U-C*G-G-GG*C-UUGGGUAAA    1

    
    CCUAUCAAAGC-------------A*U-U*A-AACU*A-GUGUGUGUG    1

    
    GGAUAAGUCGAU------------A*U-G*G-ACUA*U-AAUCGCAA-    1

    
    GUACUAAAUCGCU-----------C*G-G*G-A-AU*A-AAGACGUU-    1

    
    ACAUAAUUCU--------------C*AAU*U-C-AU*G-AAAGAAGAU    1

    
    CAAAAAGACU--------------C*G-G*G-A-AU*A-AAGUCUAAA    1

    
    CUGUAAGUC---------------A*U-U*G-AUAG*U-UUCUGCCAG    1

    
    GAAAGACGCU--------------C*G-C*G-A-AC*G-GAAAGUAAA    1

    
    GAAUAGGCU---------------A*U-U*A-GGAG*C-AAAGCCUAA    1

    
    GGAACAGCUG--------------A*U-U*G-A-AG*C-AACAGAGAA    1

    
    GGAACUGCCU--------------A*U-A*--AAAG*C-AAUGGAGAA    1

    
    ACAUAAUUCC--------------U*AAU*U-C-A-*--UAAGAAUAU    1

    
    CUCAAGGGAC--------------A*U-U*C-GGAG*C-AAGGGAG--    1

    
    CUCAAGGGAU--------------A*U-U*C-GGAG*C-AAGGGAG--    1

    
    CUGUAAGUC---------------A*U-U*G-AUAG*U-UUCUGCCA-    1

    
    GAAUAAAGCU--------------C*-GC*G-A-AG*U-GAAAGUAA-    1

    
    GGAACGCCG---------------C*G-U*G-A-AG*C-AACAGCAAA    1

    
    GGAAUUCUU---------------A*U-G*G-G-AG*C-AACAGAAAA    1

    
    GGAGCGCCG---------------C*G-U*G-A-AG*C-AACGGCAAA    1

    
    GGAUAGGGCU--------------C*G-C*G-A-A-*A-GAAAGUAAA    1

    
    GGUAAGUC----------------A*UGU*G-G-AG*CAAAACGAGA-    1

    
    GUAAAUUG----------------U*AAC*G-GUAG*C-GAGAAUAA-    1

    
    UAGAUGUGU---------------A*U-U*A-U-AG*U-AAAUGCAAG    1

    
    UGAACGAUG---------------C*G-U*G-U-UC*G-AAUAUCAAG    1

    
    UGAACGUAG---------------A*U-U*A-A-AG*C-AAAUACAAG    1

    
    UGUGACGGAA--------------C*G-U*G-G-A-*A-ACUCCAGAG    1

    
    AGAAAACG----------------A*U-U*G-G-AG*C-AACAAUGCU    1

    
    CUAAACAAGG--------------C*G-U*G-A-AU*A-AACU-UAA-    1

    
    CUAGACAAGG--------------C*G-U*G-A-AU*A--AACUUAA-    1

    
    GAACAACA----------------G*C-C*G-AUAA*G-AAUGUUAA-    1

    
    GAAUAUCG----------------G*C-U*A-UAUU*U-AAAGAUAA-    1

    
    GAAUGUCG----------------G*C-U*A-UACU*U-AAGGACAA-    1

    
    GGAUAUCG----------------C*G-U*A-UACC*U-AAAGAUAA-    1

    
    GUAGUUCC----------------C*G-C*G-GAAG*C-AACGAAAA-    1

    
    GUAGUUCC----------------C*G-C*G-GGAG*C-AACGAAAA-    1

    
    GUAUAACG----------------A*U-U*G-AAAG*C-GAAGUCAC-    1

    
    GUAUAUCG----------------A*U-U*A-UAGU*U-AAAGAUAA-    1

    
    UCUAUAAAUCGAC------------*-AA*U-GACC*G-----UUGA-    1

    
    UGUAAGUC----------------A*U-U*G-AUAG*U-UUCUGCCA-    1

    
    AAAUGCAA----------------A*U-U*A-U-AG*C-AAAUGCAA-    1

    
    CCAAGGGAU---------------A*U-U*C-GUAG*C-AAGGGG---    1

    
    CUUGUU------------------C*G-U*A-AAAU*A-AAAUGUAGG    1

    
    GAACAUUU----------------A*U-A*G-A-AG*C-AACAAUAA-    1

    
    GAACGCUA----------------G*C-U*C-U-AG*C-GAAAGCAA-    1

    
    GAACGUUG----------------A*U-U*G-U-AG*C-AAUAACAA-    1

    
    GAAUAGUC----------------A*U-G*G-A-AG*C-GACACUAA-    1

    
    GAAUGCAA----------------A*U-U*G-U-AA*U-AAGUGCAA-    1

    
    GAAUGCAA----------------A*U-U*G-U-AG*C-AAGUGCAA-    1

    
    GAAUGCAG----------------A*U-U*A-U-AG*C-AAAUGCAA-    1

    
    GAAUGCAG----------------A*U-U*G-U-AG*C-AAGUGCAA-    1

    
    GAAUGUAG----------------A*U-U*A-U-AG*C-AAAUACAA-    1

    
    GAAUGUAU----------------C*G-U*G-A-AG*C-AACUACAA-    1

    
    GCAUUCCG----------------U*A-U*G-A-AG*C-AACGGACG-    1

    
    GGAAAAUG----------------A*U-U*C-A-AG*C-AAGAUUAA-    1

    
    GGAUAAAU----------------C*G-U*G-G-AG*C-AACUUUAA-    1

    
    GUAAGGUC----------------G*CGU*G-U-AG*C-AAAC-CAA-    1

    
    GUAAUUUC----------------C*G-G*--GGAG*C-AACAAAAA-    1

    
    GUACAGCG----------------A*U-U*A-U-AG*C-AAAGCUAA-    1

    
    GUACAUAG----------------C*G-U*A-G-AG*C-GAUUAUAA-    1

    
    GUAGAAUG----------------A*U-U*C-U-AG*C-AAGAUUAA-    1

    
    GUAUAUCA----------------A*U-U*G-A-AG*C-AACGAUAA-    1

    
    GUAUGUGG----------------C*G-U*A-A-AU*A-AAUCACAA-    1

    
    GUAUGUUG----------------A*U-U*G-G-AG*C-AACGACAA-    1

    
    UCACUUG-----------------A*U-U*G-A-AG*C-AACAGAAAA    1

    
    UCUAUAAAUCGAC-----------A*A-A*U-GACC*G------UU--    1

    
    UGAAUG------------------A*U-U*U-CUUC*G-AGUAUCAAG    1

    
    UGAAUG------------------A*UUG*U-U-CU*U-AGGAGUAUC    1

    
    AAAGAGAA-----------------*A-C*G-U-AU*A-AACCGCUU-    1

    
    ACAUAAUUCC--------------C*-UU*G-U---*--UAAGAAGA-    1

    
    CAAGAAA------------------*A-C*G-U-AU*A-AACCGCUUU    1

    
    CUCGUU------------------C*GUG*A-AGAU*A-GAAAGAG--    1

    
    GGUAAUG-----------------A*U-U*G-G-AG*C-AACAAUAC-    1

    
    GGUAAUG-----------------A*U-U*G-G-AG*C-AACAAUGC-    1

    
    GGUGACG-----------------A*C-U*G-G-AG*C-AACAAUGC-    1

    
    GGUGACG-----------------A*U-U*G-G-AG*C-AACAAUGC-    1

    
    GGUGAUG-----------------A*U-U*G-A-AU*C-AACAACGC-    1

    
    GUUAUAUG----------------A*U-U*G-G-AG*C-AAUACA-C-    1

    
    CAGAAG------------------A*U-U*A-G-AG*C-AAUUAAAG-    1

    
    CCAUAAUAAU---------------*-AG*U-U-CC*G-----CUAGG    1

    
    CGAGG-------------------A*U-U*G-A-AG*C-AACCGAGCA    1

    
    GAAGUG------------------A*U-U*G-G-AG*C-AACAAAAU-    1

    
    GGGAACU-----------------C*G-U*G-A-AG*C-AAAA-GAA-    1

    
    GUAACG------------------A*U-U*G-A-AG*C-AACAAUGC-    1

    
    UAAGUA------------------A*U-U*G-A-AG*C-AACAAAGA-    1

    
    UAGAGU------------------A*U-U*G-A-AG*C-AAUAGUUA-    1

    
    UUUAAAUAC---------------C*GA-*--UCAG*U-----GCGUA    1

    
    CGAACG------------------A*U-U*G-A-AG*C-AACGGUG--    1

    
    UAAACCC------------------*-AG*U-ACGA*U-GAA--UUA-    1

    
    UAUAA-------------------U*A-A*A-UAAG*C-AAAU-UUA-    1

    
    CAAUA-------------------A*U-U*G-A-AG*C-AAUAAUG--    1

    
    CGCA--------------------C*G-U*G-G-AU*A-AAGCGAGU-    1

    
    GAAUUU------------------G*U-U*A-G-G-*--AGAUAAGU-    1

    
    UAUAA-------------------U*A-A*--UGAG*C-AAAU-UUA-    1

    
    ACA---------------------C*G-U*G-G-AU*A-AAGCGAGU-    1

    
    CAUG--------------------C*G-U*G-AUAU*U-AAAUGA---    1

    
    UUAAAAUC-----------------*-GU*C---AG*U--ACGGU---    1

    
    Omitted sequenced and counts

    
    ACAUAAUUCC--------------C*--U*U-----*--UAAGAAGAU   13

    
    ACAUAAUUCC--------------C*--U*G-U---*--AAAGAAGAU    3

    
    GGAAGACG-----------------*---*------*--ACGGACUAA    3

    
    CAUUAAAUCC--------------A*--G*C-U-AC*G-GAUUGGUAG    2

    
    GAAUAGUG----------------A*--C*G-AAAG*C-AAAACUAA-    2

    
    ACAUAAUUCC--------------C*--U*G-U---*--UAAGAAGAU    2

    
    AUAUAAUUCC--------------C*--U*G-U---*--AAAGAAGAU    2

    
    GUACCUCU----------------G*C--*--GAAG*C-AACGGGAA-    2

    
    UGUGCUCUCAAAAGGAGUUAUGUGA*U--*--AGAG*CUUACAGUUC-    1

    
    GGCUUUCGGCAGUGGAAGCUGC--C*--C*G-A-AU*A-GAAAAUGC-    1

    
    ACCUAAUCAAGACGCCCCCU----G*C--*C-A-AC*G-CCGGCCG-G    1

    
    UCUAAAUCGAU--------------*--A*--GCAG*U-UUGUGCGUG    1

    
    UUAUAAAUAC--------------A*--G*U-GUGG*C-UCUGGAUA-    1

    
    UUGUUAAGACC-------------U*--U*G-G-AG*U-CAGGCUGA-    1

    
    ACAUAAUUCC--------------C*--U*C-C-A-*--UAAGAAGAU    1

    
    ACAUAAUUCC--------------C*--U*U-C-A-*--UAAGAAUAU    1

    
    CGUAAAUCU---------------C*--U*U-UGCG*C-AAGAGUG--    1

    
    GUAUAAUG----------------C*--C*A-AUAA*A-AAAAUUAA-    1

    
    ACAUAAAUCC--------------C*--U*G-U---*--UAAGAAGAU    1

    
    CUUGAUGA----------------A*--A*C-UCUC*G--AGCGGAG-    1

    
    GAAGAGCA----------------U*G--*--UAGC*A-AAUGCUAA-    1

    
    GAAUAACA----------------G*C--*--UAGC*A-AAUGUUAA-    1

    
    GAAUGUUG----------------A*--U*G-U-AG*C-AAUAACAA-    1

    
    GCAUAAAUCC--------------C*--U*G-U---*--AAAGAAGAU    1

    
    GUAUUUUC----------------A*--C*G-A-AG*C-AACAAAAA-    1

    
    UCAAUGC-----------------A*--U*G-A-AG*C-AAGCAAGGA    1

    
    ACAUAAAUCC--------------C*--U*U-----*--UAAGAAGAU    1

    
    CGUAAUUCU---------------C*--U*G-U---*--UAAGAAGAU    1

    
    GCAUAAUUCC--------------C*--U*G-U---*--UAAGAAGA-    1

    
    AAGAGA-------------------*--A*U-CCGG*C-ACCGCUUU-    1

    
    CAAAUAA------------------*--G*UUACGG*C-GCUU-UG--    1

    
    UAGAGC------------------A*U--*--U-AA*U-UAUUAAAAA    1

    
    CAAAUAAGG----------------*---*--G-A-*A-ACCGCUUU-    1

    
    UGAAUGAUG----------------*--C*G----C*G-UAUCAAG--    1

    
    GGAAGACGA----------------*---*------*--ACGGACUAA    1

    
    CACAAGA------------------*--G*A-U-UC*G-----CUGU-    1

    
    CAUAA-------------------G*A--*------*--CCACCGUGU    1

    
    ------------------------C*G--*------*-----------    1
Click on headings to reorder table
# Matching motif group Acceptance Rate Mean Cutoff Score Full Edit Distance Interior Edit Distance Basepair Diagram and most common annotation
1

Motif group J4_61885.6

Basepair signature:
cWW-cWW-cWW-F-F-tHW-F-F-F-F-F-cWW-F-F

0.00 -271.55 15 12

2

Motif group J4_94519.1

Basepair signature:
cWW-F-F-F-F-F-cWW-F-F-F-F-cWW-cWW

0.00 -361.15 14 11

tRNA junction

3

Motif group J4_80682.1

Basepair signature:
cWW-F-F-F-F-F-cWW-cWW-F-cWW-F

0.00 -367.79 16 12

tRNA junction

4

Motif group J4_01665.1

Basepair signature:
cWW-tWH-F-tWH-cWW-tSS-F-tHW-tSS-cWW-cWW

0.00 -381.50 16 12

5

Motif group J4_98739.1

Basepair signature:
cWW-F-F-F-F-cWW-F-F-F-F-F-F-F-F-cWW-cWW-F-F-F

0.00 -388.84 19 16

6

Motif group J4_70672.1

Basepair signature:
cWW-tSH-F-F-F-F-F-F-cSW-F-tHS-cWW-cWW-cWW-F-cWW-F

0.00 -400.52 21 17

7

Motif group J4_65285.1

Basepair signature:
cWW-F-F-F-F-F-cWW-cWW-F-cWW-F

0.00 -418.57 15 12

tRNA junction

8

Motif group J4_12209.1

Basepair signature:
cWW-F-F-F-cWW-tWH-F-cWW-F-F-F-tWS-tWH-F-F-F-F-F-cSH-cWW-F

0.00 -443.71 18 13

RNase P junction

9

Motif group J4_45801.6

Basepair signature:
cWW-cWW-cSS-F-tHH-cWW-cSH-tWH-F-tHS-F-cWW

0.00 -447.46 17 12

10

Motif group J4_80390.1

Basepair signature:
cWW-cWW-cWW-F-F-cWW-F-F

0.00 -465.57 16 13

tRNA junction

11

Motif group J4_40477.1

Basepair signature:
cWW-F-cWW-F-cWW-cHW-F-F-F-cWW-F

0.00 -483.75 15 13

tRNA junction

12

Motif group J4_13620.1

Basepair signature:
cWW-F-F-F-F-F-cWW-cWW-cHS-F-F-F-cWW-F

0.00 -525.77 19 16

13

Motif group J4_57327.1

Basepair signature:
cWW-F-F-F-F-F-F-F-F-cWW-F-cWW-F-F-F

0.00 -526.04 20 16

14

Motif group J4_47701.1

Basepair signature:
cWW-F-F-cWW-F-cWW-cWW-cWW-F-F-F-F

0.00 -533.12 16 15

15

Motif group J4_19572.1

Basepair signature:
cWW-F-cSW-F-F-tWH-cWW-F-cHW-F-cWW-F-tWS-F-cWW-F-F-F-cSH-tWH-cWW-F-F-F

0.00 -546.41 19 15

RNase P junction

16

Motif group J4_70449.28

Basepair signature:
cWW-F-cWW-cWW-cHS-F-cWW-cWW

0.00 -550.27 14 12

tRNA junction

17

Motif group J4_59845.1

Basepair signature:
cWW-tSW-F-cWW-F-F-cWW-F-F-cWW-F-F

0.00 -588.77 15 13

18

Motif group J4_36296.3

Basepair signature:
cWW-F-cWW-cWW-F-F-F-cWW

0.00 -615.54 15 12

tRNA junction

19

Motif group J4_16596.1

Basepair signature:
cWW-F-F-F-cWW-F-cWW-F-cWW-cWW-F-F

0.00 -620.65 17 14

Cobalamin riboswitch junction

20

Motif group J4_61477.5

Basepair signature:
cWW-tSW-F-tHS-tHS-F-cWW-cWW-F-tHS-cWW

0.00 -629.05 18 14

21

Motif group J4_91813.1

Basepair signature:
cWW-cWW-F-tSH-cWW-F-F-F-cWW-F

0.00 -631.88 18 13

22

Motif group J4_11418.1

Basepair signature:
cWW-F-F-tSH-cHH-F-F-tHS-cWW-cWW-F-F-cWW

0.00 -634.32 17 14

23

Motif group J4_59634.1

Basepair signature:
cWW-F-F-F-cHS-F-F-F-F-F-F-F-F

0.00 -644.80 19 15

24

Motif group J4_88771.1

Basepair signature:
cWW-tSS-cWW-tSS-cWW-cWW-tWH-tWH-cSH-cWW

0.00 -655.90 16 13

25

Motif group J4_54165.1

Basepair signature:
cWW-F-F-F-cWW-cWW-cWW-cWW-cWW-F-F

0.00 -674.68 17 15

26

Motif group J4_12410.1

Basepair signature:
cWW-cWW-F-F-cSS-F-cWW-tHS-cWW-F-cWW

0.00 -675.27 17 14

27

Motif group J4_44058.1

Basepair signature:
cWW-cWW-F-cWW-F-cWW-cWW-F-cWW-F

0.00 -679.87 18 14

28

Motif group J4_07509.2

Basepair signature:
cWW-tSW-F-F-tHS-F-cWW-F-cWW-F-F-tHS-F-cWW

0.00 -681.08 19 16

29

Motif group J4_69051.6

Basepair signature:
cWW-F-cWW-F-tHW-F-cWW-F-F-F-F-F-cWW-cWW

0.00 -684.26 19 18

30

Motif group J4_10313.5

Basepair signature:
cWW-cWW-tHW-F-F-F-F-F-F-cWW-cWW

0.00 -690.59 17 15

31

Motif group J4_04930.6

Basepair signature:
cWW-F-F-tWW-tHH-cWW-cWW-cHW-cWW

0.00 -691.01 16 13

32

Motif group J4_10571.1

Basepair signature:
cWW-F-F-F-cWW-F-F-cWW-F

0.00 -695.67 17 14

33

Motif group J4_63658.1

Basepair signature:
cWW-tSS-cSS-cWH-cWW-tWH-tHS-cWW-cWW-tSW-F-cSH-F-F

0.00 -719.88 16 13

34

Motif group J4_71729.5

Basepair signature:
cWW-tSH-cHH-F-F-tHS-cWW-cWW-F-F-cWW

0.00 -722.28 16 13

35

Motif group J4_77044.4

Basepair signature:
cWW-F-tHS-F-cWW-cWW-cWW-F-cWW

0.00 -765.92 17 14

36

Motif group J4_15241.1

Basepair signature:
cWW-cSH-tHS-cWW-F-F-tHW-F-cWW-F-F-F-cWW

0.00 -782.52 19 17

37

Motif group J4_36540.1

Basepair signature:
cWW-cWW-F-F-F-cWW-F-cWW-F-F

0.00 -788.71 18 16

38

Motif group J4_89787.1

Basepair signature:
cWW-F-cWW-F-F-F-F-F-F-F-cWW-cWW

0.00 -790.06 21 18

39

Motif group J4_60168.1

Basepair signature:
cWW-F-F-F-F-F-cWW-F-F-F-cWW-F-tSS-F-cWW

0.00 -808.16 18 14

40

Motif group J4_28426.1

Basepair signature:
cWW-F-cWW-F-F-F-F-F-cWW-cWW

0.00 -840.91 19 16

SAM-I/IV riboswitch junction

41

Motif group J4_26776.1

Basepair signature:
cWW-tSH-F-cWW-cWW-F-tHS-cWW

0.00 -845.89 20 16

42

Motif group J4_99897.1

Basepair signature:
cWW-F-cWW-cWW-cWW-cWW-F-cWW

0.00 -847.02 17 15

43

Motif group J4_40439.2

Basepair signature:
cWW-F-cWW-F-F-F-F-F-cWW-F-cWW

0.00 -859.01 18 15

SAM-I riboswitch junction

44

Motif group J4_35578.3

Basepair signature:
cWW-F-cWW-F-F-F-tHW-F-cWW-cWW

0.00 -876.79 20 17

45

Motif group J4_87855.1

Basepair signature:
cWW-F-cWW-F-F-F-cWW-F-cWW

0.00 -883.94 20 17

46

Motif group J4_48692.1

Basepair signature:
cWW-tHW-F-F-cWW-cWW-cWW

0.00 -886.85 18 14

47

Motif group J4_97085.2

Basepair signature:
cWW-cWW-F-cWW-tHS-cWW-F-F

0.00 -909.61 18 15

48

Motif group J4_28473.1

Basepair signature:
cWW-F-F-F-cWW-cWW-F-cWW-F

0.00 -926.81 19 15

49

Motif group J4_24220.1

Basepair signature:
cWW-F-F-tWS-F-F-cWW-tHS-cWW-cWW

0.00 -929.85 16 13

50

Motif group J4_95838.1

Basepair signature:
cWW-F-F-cWW-F-F-cWW-cWW-F

0.00 -933.44 18 15

51

Motif group J4_47842.1

Basepair signature:
cWW-F-F-tWS-F-cWH-cWW-cWW-cWW-cWW

0.00 -956.17 17 13

52

Motif group J4_93343.1

Basepair signature:
cWW-tSS-cSS-cWH-cWW-tWH-tHS-cWW-cWW-tWW-F-cSH-F-F

0.00 -973.68 16 13

53

Motif group J4_75852.1

Basepair signature:
cWW-tSW-cSS-cWW-F-cSH-cWW-cWW-F-F

0.00 -992.32 21 19

54

Motif group J4_72305.5

Basepair signature:
cWW-F-cWW-cWW-cHS-F-cWW

0.00 -1040.87 16 14

tRNA junction

55

Motif group J4_65052.1

Basepair signature:
cWW-cWW-cWW-F-cWW-tWS-cWW

0.00 -1156.81 20 16

56

Motif group J4_04237.1

Basepair signature:
cWW-F-F-F-cWH-F-F-F-F-cWW-F-F-F-F-cWW-F-F-F-F-F-F-F-F-F-F

0.00 -1174.00 34 31

57

Motif group J4_64571.5

Basepair signature:
cWW-F-cWW-tSS-cWW-F-cWW

0.00 -1265.29 17 16

58

Motif group J4_57344.1

Basepair signature:
cWW-F-cWW-F-cWW-cSH-cWW

0.00 -1268.81 19 15

59

Motif group J4_07491.2

Basepair signature:
cWW-F-F-tWS-F-F-cWW-cWW-cWW

0.00 -1492.02 18 14

Purine riboswitch junction

60

Motif group J4_47478.1

Basepair signature:
cWW-F-cWW-cWS-cHW-cWW-cWW

0.00 -1503.20 18 15

61

Motif group J4_69073.1

Basepair signature:
cWW-cHS-cWW-cWS-cHW-cWW-cWW

0.00 -1503.20 18 15

62

Motif group J4_63076.1

Basepair signature:
cWW-tSS-cWW-cWW-cWW

0.00 -1589.67 19 16

class I ligase product junction

63

Motif group J4_65356.1

Basepair signature:
cWW-tSS-cWW-cWW-cWW-cWW

0.00 -1786.77 20 17

64

Motif group J4_45582.1

Basepair signature:
cWW-F-cWW-cWW-cWW-cWW

0.00 -1789.64 21 17

65

Motif group J4_46448.1

Basepair signature:
cWW-cWS-tSH-cWW-cWW-cWW

0.00 -1980.71 18 16

66

Motif group J4_24280.2

Basepair signature:
cWW-cWW-cWW-cWW

0.00 -1987.28 18 16

67

Motif group J4_00691.2

Basepair signature:
cWW-cWW-cWW-cWW

0.00 -2037.54 19 17

68

Motif group J4_43687.2

Basepair signature:
cWW-cWW-cWW-cWW-cWW

0.00 -2379.01 18 15

69

Motif group J4_76096.5

Basepair signature:
cWW-cWW-cWW-cWW

0.00 -2678.98 18 17

Coloring options: